I’m currently trying to get a grasp of qupath and what it can do, using the tutorials ect.
However, I was not able to find how to measure the percentage of a DAB+ surface (/cells) in a TMA core compared to the total surface area of the core without doing cell segmentation.
Did I overlook something? Or isn’t this feasible and should I go for segmentation?
I am not sure if there is a “Pixel classifier” post at this time, but there are quite a few posts scattered around the forum relating to other people using it if you look.
Guide on using SLICs in the earlier versions of QuPath.
once you have something working, it will probably need to be altered to work in a TMA format. Simple tissue detection CAN be run on a TMA grid, however, and there are scripts to name the annotations after their TMA grid location.